A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report
generated on 2024-02-26, 17:39 +03
based on data in:
/data/coursework2024/week1/study_monocyte/results/summary_files
General Statistics
| Sample Name | % Expression Efficiency | # Genes | % rRNA Alignment | % Aligned | M Aligned |
|---|---|---|---|---|---|
| SRR26055764 | 81.8% | 21579 | 0.5% | 93.0% | 46.5 M |
| SRR26055765 | 83.4% | 18969 | 1.4% | 94.0% | 23.0 M |
| SRR26055766 | 82.3% | 21014 | 0.6% | 93.0% | 35.7 M |
| SRR26055767 | 81.6% | 19652 | 0.8% | 92.9% | 22.7 M |
| SRR26055768 | 82.4% | 20654 | 0.3% | 93.0% | 37.8 M |
RNA-SeQC
RNA-SeQC Fast, efficient RNA-Seq metrics for quality control and process optimization.DOI: 10.1093/bioinformatics/btab135; 10.1093/bioinformatics/bts196.
Transcript-associated reads
All of the rates given are per mapped read.
- Exonic Rate is the fraction mapping within exons.
- Intronic Rate is the fraction mapping within introns.
- Intergenic Rate is the fraction mapping in the genomic space between genes.
Strand Specificity
End 1/2 Sense are the number of End 1 or 2 reads that were sequenced in the sense direction.
End 1/2 Antisense are the number of End 1 or 2 reads that were sequenced in the antisense direction
Read Counts
Number of reads (millions) falling into different categories.
Note that many of these statistics are only available from RNA-SeQC v2.x
STAR
STAR is an ultrafast universal RNA-seq aligner.DOI: 10.1093/bioinformatics/bts635.
Alignment Scores
Gene Counts
Statistics from results generated using --quantMode GeneCounts. The three tabs show counts for unstranded RNA-seq, counts for the 1st read strand aligned with RNA and counts for the 2nd read strand aligned with RNA.
